Figure 3

(A) PCA of gene expression profiles. Each case of so-called MFS (blue), US1 (orange), and US2 (red) is shown as a dot of a different color. Plots were clustered into the so-called MFS (blue frame), US1 (orange frame), and US2 (red frame) groups. (B), (C), and (D) Hierarchical clustering analysis for the KEGG_ PROTEASOME, BIOCARTA_NFκB, and KEGG_VEGF_signaling pathways, respectively. Cases of the so-called MFS, US1, and US2 clusters are shown in blue, yellow, and red boxes, respectively, alongside the case numbers. The identified clusters are shown using different colors (See text). Each complete result, with a heat map and the names of the individual gene in the pathway, is provided in Supplementary Figure S1. M, so-called MFS. (E) Box-and-whisker diagrams, analysis of genes in the PROTEASOME, NFκB, and VEGF signaling pathways and SWI/SNF complex-related sarcoma genes, which showed significantly different expression levels between the so-called MFS and US1/US2 (so-called US) groups, and (F) comparison between the so-called MFS/US1 and US2 (prominent sickle-shaped blood vessels) are shown. (G) Twelve genes with significant differences were used for the hierarchical clustering analysis. Cases of the so-called MFS, US1, and US2 groups are shown using blue, yellow, and red boxes, respectively, at the top of the heat map. Further, the clusters identified are shown using different colors (See text). The heat map shows the degree of change in the expression level of each gene according to the color range shown in the histogram (upper left). M, so-called MFS.